- Save and execute code
- Flexible compartmentalized work flow
- Document your work
- Lab book for your code
- Turn your analyses into documents
- Self contained replication friendly output
- Use multiple languages (R, Python, SQL) in a single .rmd
20/01/2021
What is R Markdown?
Set up
install.packages('rmarkdown')
Set up
Set up
Set up
- Can use R Markdown outside of R Studio
# Render the default (first) format defined in the file
render("input.Rmd")
# Render multiple formats
render("input.Rmd", c("html_document", "pdf_document"))
What is R Markdown?
.rmd is similar to a R script, but it is better..
What is R Markdown?
.rmd is similar to a R script, but it is better..
What is R Markdown?
Knit document, lots of output formats
Executes and displays code and/or outputs
No export/insert required
plot(pressure)
Executes and displays code and/or outputs
Lots of output formats
- html_document
- pdf_document
- word_document
- odt_document
- rtf_document
- isoslides_presentation
- slidy_presentation
- powerpoint_presentation
- shiny_document
- shiny_slides
Visual R Markdown
https://rstudio.github.io/visual-markdown-editing/#/
- R Studio 1.4 (20210119)
- Zotero Integration
- Real time Spell Checking
- Rich Keyboard Support
Multilingual
Why use HTML?
Why use HTML?
- Compatible for anyone using a web browser
- Light weight small files sizes
- Responsive, scales to the width of the window
- Can add some useful features;
Checkbox
Drop Down Menu
- Spare notes can go in hereWhy use HTML?
Interactive Outputs
Code
LEC <- leaflet() %>%
addProviderTiles("Stamen.Watercolor") %>%
addMarkers(lng=-2.7869553637288207, lat=54.009157481709096, popup="Lancaster Environment Centre")
Why use HTML?
Interactive Outputs
Why use HTML?
Interactive Tables
Why use HTML?
Fully self contained reproducable file
Why use HTML?
Fully self contained reproducable file
Why use HTML?
- Demo
- Mention Bookdown